RchiOBHm_Chr5g0057911

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0006036
Physical Location & Seq
Forward (+)
62042921 .. 62047649
4729 bp
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UTR
Exon/CDS
Intron
PRQ33464

Sequence Viewer

Length: 1338 bp
ATGTCGTTCCACAACGTCCTGCGAACCCTGAAAACTGTGAAAGTAAGAACCCAAGTACCCTTTCAAGAATTCTGTGAACTAATCTCTGCAATCCCAAGTCCCTCAGCTGCTCCAAAACCCTTGAATCCCACCACCATTTCCCTCCTGTCCAAGCTCAACCCCAACTCTCTGCACCTCATCCTCTCAGAACCCACACTCAGCGCCTCCAAATGCCTTGTCTTCTTCAACTTCCTCCTCAAAAACCAGTCCTTTATCTCATTCAAACTTGACCTCCAAGCCCACTTGACTCTCATTTGCAGGCTTATCAGGGCAAGAAAGATCACACTTGCGGAGCAAGTTTTCAAGTCCATCTCGGTTGATCAAAATTCCAGGTACCCATTTCGTGCCATTGCTTCTTGTGTTGAAGTGTGTTGTCTTGAACCTGTGGTTGAAGCCAAATTGTTCAATTTGATGCTTAAAGTTTACTCTGATATCAAAAATTTCGATGGAGGTTTGGAGACTTTTGATTACATCAAGAGTATTGGGATTCGGATAGATGAGAGGACATATAATTTTTTTTCGGTTGCTATGAACAGAGCTGGTGAGGTGGAAAAGGGTATAGATTTCTTGTATAGATTGTTATATTCGGGCACTGGGGTCTCTGTGTATTGTTTGACAGCTGTGGTGGAGGGGATGTGTAGGAATGGAGAGATTACAAGGAGTAGAGAGTTGGTGCAGGAAATGGCTAGTAGGGGAATTAAACCCAATATCATCACATTCAATATAATGGTGGAAGCTTGTGCTAAGAGATGGAACTTTTCGGAGTTGGATTTGATTTTGCCTCTGATGGAAAAGGAAGGAGTTGCATTTGATGTCAAGACATATGAATTCTTGATCGATGGCTTCACGAGCTCCGGGAAGGTAGAAGAAGCCGAAAGATTGGTTGGGGAGATGCATGACAAGGGATTGAAAGTAAAAACTCATGTATACAATTTGATAATAAATAGCTATTGTAGAAAAGGTTTTCTGGAAGGTGCTCTTTCTTTGTTTTCCAAGATGGCTGAGAGAAGTATATTCCAGAATGCTGATACATACTGGTTTCTAATAAATGGTATTTGCAAGGTTGGAGAGATGGGGCTGGCAATGCAATATGTTAATGAGATGCAGAACAAGGGATTTGAATTAGACAATCTTGACTGCAACATCTTGGCTGATGGTTTTCGCAGCAAAGGGATGGCCAACGAGCTTTTTGAGTTACAGGCGTTGATGGAGAAAAAAAGTTCTAAAGCTAATGGCTTTAAACAGAAGAAAAATGGATACGACTTGACGAGGAAGCAGCCAGCTGTACATAATAATTAA

Protein Analysis

445

Amino Acids

50.37

Weight (kDa)

8.68

Isoelectric Point (pI)

30.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 213 - 263 3.9e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 214 - 262 3.2e-10 PPR repeat family
PPR_3 PF13812 272 - 330 4.4e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 280 - 311 3.1e-06 PPR repeat
PPR_1 PF12854 314 - 346 1.3e-06 PPR repeat
PPR_2 PF13041 320 - 367 4.1e-12 PPR repeat family
PPR PF01535 322 - 350 2.3e-07 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 372
AccB1I GGYRCC 1 cut(s) 372
AccI GTMKAC 1 cut(s) 966
AciI CCGC 1 cut(s) 329
AcoI YGGCCR 1 cut(s) 1215
AcsI RAATTY 4 cut(s) 68, 364, 478, 866
AfaI GTAC 3 cut(s) 57, 374, 1326
AjnI CCWGG 1 cut(s) 368
AjuI GAANNNNNNNTTGG 4 cut(s) 45, 77, 906, 938
Alw21I GWGCWC 2 cut(s) 893, 1018
Alw26I GTCTC 2 cut(s) 491, 643
AoxI GGCC 1 cut(s) 1215
ApeKI GCWGC 3 cut(s) 107, 1203, 1315
ApoI RAATTY 4 cut(s) 68, 364, 478, 866
ArsI GACNNNNNNTTYG 2 cut(s) 201, 233
Asp718I GGTACC 1 cut(s) 372
AspLEI GCGC 1 cut(s) 203
AsuC2I CCSGG 1 cut(s) 895
AsuHPI GGTGA 1 cut(s) 593
BaeGI GKGCMC 1 cut(s) 632
BaeI ACNNNNGTAYC 2 cut(s) 39, 72
BalI TGGCCA 1 cut(s) 1217
BanI GGYRCC 1 cut(s) 372
BanII GRGCYC 1 cut(s) 893
BauI CACGAG 1 cut(s) 886
BbsI GAAGAC 1 cut(s) 211
Bbv12I GWGCWC 2 cut(s) 893, 1018
BbvCI CCTCAGC 1 cut(s) 103
BbvI GCAGC 3 cut(s) 94, 1215, 1327
BciT130I CCWGG 1 cut(s) 370
BciVI GTATCC 1 cut(s) 1289
BclI TGATCA 1 cut(s) 358
BcnI CCSGG 1 cut(s) 895
BcoDI GTCTC 2 cut(s) 491, 643
BfaI CTAG 1 cut(s) 726
BfoI RGCGCY 1 cut(s) 204
BfuI GTATCC 1 cut(s) 1289
BisI GCNGC 3 cut(s) 108, 1204, 1316
BlsI GCNGC 3 cut(s) 109, 1205, 1317
Bme1390I CCNGG 2 cut(s) 370, 895
BmiI GGNNCC 1 cut(s) 374
BmrFI CCNGG 2 cut(s) 370, 895
BmrI ACTGGG 1 cut(s) 642
BmsI GCATC 3 cut(s) 441, 921, 1131
BmuI ACTGGG 1 cut(s) 642
BpiI GAAGAC 1 cut(s) 211
Bpu10I CCTNAGC 1 cut(s) 103
BpuMI CCSGG 1 cut(s) 895
Bsa29I ATCGAT 1 cut(s) 876
BsaI GGTCTC 1 cut(s) 643
BsaXI ACNNNNNCTCC 4 cut(s) 255, 285, 659, 689
Bse1I ACTGG 3 cut(s) 244, 637, 1079
Bse3DI GCAATG 2 cut(s) 387, 1128
BseBI CCWGG 1 cut(s) 370
BseCI ATCGAT 1 cut(s) 876
BseGI GGATG 3 cut(s) 177, 678, 1218
BseMI GCAATG 2 cut(s) 387, 1128
BseMII CTCAG 4 cut(s) 117, 198, 211, 1032
BseNI ACTGG 3 cut(s) 244, 637, 1079
BseRI GAGGAG 1 cut(s) 224
BseSI GKGCMC 1 cut(s) 632
BseXI GCAGC 3 cut(s) 94, 1215, 1327
BsgI GTGCAG 2 cut(s) 155, 734
BshFI GGCC 1 cut(s) 1217
BshNI GGYRCC 1 cut(s) 372
BshVI ATCGAT 1 cut(s) 876
BsiHKAI GWGCWC 2 cut(s) 893, 1018
BsiSI CCGG 1 cut(s) 894
BslFI GGGAC 1 cut(s) 84
BsmAI GTCTC 2 cut(s) 491, 643
BsmFI GGGAC 1 cut(s) 84
BsmI GAATGC 1 cut(s) 1066
BsnI GGCC 1 cut(s) 1217
Bso31I GGTCTC 1 cut(s) 643
Bsp1286I GDGCHC 3 cut(s) 632, 893, 1018
Bsp1407I TGTACA 1 cut(s) 1324
Bsp143I GATC 3 cut(s) 318, 358, 873
BspACI CCGC 1 cut(s) 329
BspANI GGCC 1 cut(s) 1217
BspCNI CTCAG 4 cut(s) 116, 197, 210, 1033
BspDI ATCGAT 1 cut(s) 876
BspLI GGNNCC 1 cut(s) 374
BspT107I GGYRCC 1 cut(s) 372
BspTNI GGTCTC 1 cut(s) 643
BsrDI GCAATG 2 cut(s) 387, 1128
BsrGI TGTACA 1 cut(s) 1324
BsrI ACTGG 3 cut(s) 244, 637, 1079
BssMI GATC 3 cut(s) 318, 358, 873
BssNAI GTATAC 1 cut(s) 967
BssSI CACGAG 1 cut(s) 886
Bst1107I GTATAC 1 cut(s) 967
Bst2BI CACGAG 1 cut(s) 886
Bst2UI CCWGG 1 cut(s) 370
Bst4CI ACNGT 1 cut(s) 37
BstAUI TGTACA 1 cut(s) 1324
BstC8I GCNNGC 3 cut(s) 299, 1119, 1320
BstDEI CTNAG 5 cut(s) 103, 184, 197, 783, 1041
BstF5I GGATG 3 cut(s) 177, 678, 1218
BstH2I RGCGCY 1 cut(s) 204
BstHHI GCGC 1 cut(s) 203
BstKTI GATC 3 cut(s) 321, 361, 876
BstMAI GTCTC 2 cut(s) 491, 643
BstMBI GATC 3 cut(s) 318, 358, 873
BstMWI GCNNNNNNNGC 2 cut(s) 888, 1123
BstNI CCWGG 1 cut(s) 370
BstSCI CCNGG 2 cut(s) 368, 893
BstSLI GKGCMC 1 cut(s) 632
BstV1I GCAGC 3 cut(s) 94, 1215, 1327
BstV2I GAAGAC 1 cut(s) 211
BstZ17I GTATAC 1 cut(s) 967
Bsu15I ATCGAT 1 cut(s) 876
BsuI GTATCC 1 cut(s) 1289
BsuRI GGCC 1 cut(s) 1217
BsuTUI ATCGAT 1 cut(s) 876
BtsCI GGATG 3 cut(s) 177, 678, 1218
BtsIMutI CAGTG 1 cut(s) 630
Cac8I GCNNGC 3 cut(s) 299, 1119, 1320
CfoI GCGC 1 cut(s) 203
ClaI ATCGAT 1 cut(s) 876
Csp6I GTAC 3 cut(s) 56, 373, 1325
CviAII CATG 2 cut(s) 935, 962
CviQI GTAC 3 cut(s) 56, 373, 1325
DdeI CTNAG 5 cut(s) 103, 184, 197, 783, 1041
DpnI GATC 3 cut(s) 320, 360, 875
DpnII GATC 3 cut(s) 318, 358, 873
DraI TTTAAA 1 cut(s) 1279
EaeI YGGCCR 1 cut(s) 1215
Ecl136II GAGCTC 1 cut(s) 891
Eco24I GRGCYC 1 cut(s) 893
Eco31I GGTCTC 1 cut(s) 643
Eco32I GATATC 1 cut(s) 472
Eco53kI GAGCTC 1 cut(s) 891
EcoICRI GAGCTC 1 cut(s) 891
EcoRI GAATTC 2 cut(s) 68, 866
EcoRII CCWGG 1 cut(s) 368
EcoRV GATATC 1 cut(s) 472
EcoT22I ATGCAT 1 cut(s) 936
EcoT38I GRGCYC 1 cut(s) 893
FaeI CATG 2 cut(s) 938, 965
FalI AAGNNNNNCTT 2 cut(s) 1002, 1034
FaqI GGGAC 1 cut(s) 84
FatI CATG 2 cut(s) 934, 961
FauNDI CATATG 1 cut(s) 862
FbaI TGATCA 1 cut(s) 358
FblI GTMKAC 1 cut(s) 966
Fnu4HI GCNGC 3 cut(s) 108, 1204, 1316
FokI GGATG 3 cut(s) 164, 685, 1225
FriOI GRGCYC 1 cut(s) 893
Fsp4HI GCNGC 3 cut(s) 108, 1204, 1316
FspBI CTAG 1 cut(s) 726
GlaI GCGC 1 cut(s) 202
GluI GCNGC 3 cut(s) 108, 1204, 1316
HaeII RGCGCY 1 cut(s) 204
HaeIII GGCC 1 cut(s) 1217
HapII CCGG 1 cut(s) 894
HhaI GCGC 1 cut(s) 203
Hin1II CATG 2 cut(s) 938, 965
Hin6I GCGC 1 cut(s) 201
HinP1I GCGC 1 cut(s) 201
HindIII AAGCTT 1 cut(s) 774
HinfI GANTC 3 cut(s) 124, 286, 526
HpaII CCGG 1 cut(s) 894
HphI GGTGA 1 cut(s) 593
Hpy166II GTNNAC 3 cut(s) 77, 463, 967
Hpy188I TCNGA 5 cut(s) 187, 469, 531, 802, 825
Hpy188III TCNNGA 9 cut(s) 65, 416, 514, 856, 871, 886, 1007, 1057, 1172
Hpy8I GTNNAC 3 cut(s) 77, 463, 967
HpyAV CCTTC 3 cut(s) 830, 892, 1004
HpyCH4III ACNGT 1 cut(s) 37
HpyCH4IV ACGT 1 cut(s) 15
HpyF10VI GCNNNNNNNGC 2 cut(s) 888, 1123
HpyF3I CTNAG 5 cut(s) 103, 184, 197, 783, 1041
HpySE526I ACGT 1 cut(s) 15
Hsp92II CATG 2 cut(s) 938, 965
HspAI GCGC 1 cut(s) 201
KpnI GGTACC 1 cut(s) 376
Ksp22I TGATCA 1 cut(s) 358
Kzo9I GATC 3 cut(s) 318, 358, 873
LmnI GCTCC 3 cut(s) 115, 331, 896
Lsp1109I GCAGC 3 cut(s) 94, 1215, 1327
LweI GCATC 3 cut(s) 441, 921, 1131
MaeI CTAG 1 cut(s) 726
MaeII ACGT 1 cut(s) 15
MaeIII GTNAC 1 cut(s) 1233
MalI GATC 3 cut(s) 320, 360, 875
MboI GATC 3 cut(s) 318, 358, 873
MboII GAAGA 4 cut(s) 211, 214, 917, 1297
MhlI GDGCHC 3 cut(s) 632, 893, 1018
MlsI TGGCCA 1 cut(s) 1217
MluNI TGGCCA 1 cut(s) 1217
MlyI GAGTC 1 cut(s) 280
MmeI TCCRAC 2 cut(s) 786, 1084
Mox20I TGGCCA 1 cut(s) 1217
Mph1103I ATGCAT 1 cut(s) 936
MscI TGGCCA 1 cut(s) 1217
MseI TTAA 5 cut(s) 456, 738, 1134, 1278, 1336
Msp20I TGGCCA 1 cut(s) 1217
MspA1I CMGCKG 3 cut(s) 107, 659, 1322
MspI CCGG 1 cut(s) 894
MspR9I CCNGG 2 cut(s) 370, 895
Mva1269I GAATGC 1 cut(s) 1066
MvaI CCWGG 1 cut(s) 370
MwoI GCNNNNNNNGC 2 cut(s) 888, 1123
NciI CCSGG 1 cut(s) 895
NdeI CATATG 1 cut(s) 862
NdeII GATC 3 cut(s) 318, 358, 873
NlaIII CATG 2 cut(s) 938, 965
NlaIV GGNNCC 1 cut(s) 374
NsiI ATGCAT 1 cut(s) 936
PctI GAATGC 1 cut(s) 1066
PfeI GAWTC 2 cut(s) 124, 526
PfoI TCCNGGA 1 cut(s) 893
PkrI GCNGC 3 cut(s) 109, 1205, 1317
PleI GAGTC 1 cut(s) 280
PpsI GAGTC 1 cut(s) 280
Psp124BI GAGCTC 1 cut(s) 893
Psp6I CCWGG 1 cut(s) 368
PspGI CCWGG 1 cut(s) 368
PspN4I GGNNCC 1 cut(s) 374
PvuII CAGCTG 3 cut(s) 107, 659, 1322
RsaI GTAC 3 cut(s) 57, 374, 1326
RsaNI GTAC 3 cut(s) 56, 373, 1325
SacI GAGCTC 1 cut(s) 893
SaqAI TTAA 5 cut(s) 456, 738, 1134, 1278, 1336
SatI GCNGC 3 cut(s) 108, 1204, 1316
Sau3AI GATC 3 cut(s) 318, 358, 873
SchI GAGTC 1 cut(s) 280
ScrFI CCNGG 2 cut(s) 370, 895
SduI GDGCHC 3 cut(s) 632, 893, 1018
SfaNI GCATC 3 cut(s) 441, 921, 1131
SsiI CCGC 1 cut(s) 329
SspMI CTAG 1 cut(s) 726
SstI GAGCTC 1 cut(s) 893
StyD4I CCNGG 2 cut(s) 368, 893
TaaI ACNGT 1 cut(s) 37
TaiI ACGT 1 cut(s) 18
TaqI TCGA 2 cut(s) 483, 876
TatI WGTACW 1 cut(s) 1324
TfiI GAWTC 2 cut(s) 124, 526
Tru1I TTAA 5 cut(s) 456, 738, 1134, 1278, 1336
Tru9I TTAA 5 cut(s) 456, 738, 1134, 1278, 1336
TscAI CASTG 1 cut(s) 637
TseI GCWGC 3 cut(s) 107, 1203, 1315
TspDTI ATGAA 2 cut(s) 584, 879
TspRI CASTG 1 cut(s) 637
XapI RAATTY 4 cut(s) 68, 364, 478, 866
XmiI GTMKAC 1 cut(s) 966
XspI CTAG 1 cut(s) 726
Zsp2I ATGCAT 1 cut(s) 936
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.